RetrogeneDB ID: retro_nleu_516

Retrocopy location

• Organism: Gibbon (Nomascus leucogenys)
• Coordinates: GL397266.1:22968652..22969607(-)
• Located in intron of: ENSNLEG00000014330

Retrocopy information

• Ensembl ID: None
• Aliases: None
• Status: NOVEL

Parental gene information

• Parental gene symbol: DPF2
• Ensembl ID: ENSNLEG00000005574
• Aliases: None
• Description: None

Sequence

>retro_nleu_516
TACTCCTACCCTGCCCGGCACTGGTGGAAAAAGCGGTGAGCCCACCCCCAAGAAGATCCACAACTTTCCTTCCCACCTAT
TAAGCCAGACACAGACCACACCCTGAAGAAGGAGGGGCTGATCTCTCAGGACAGCAGCAGTTTAGAGGTTCTGTTGCACA
CTGACCCCCTGGAGAAGCAAGGTGCCCCAGATCCCCGAGTTGATGATGACAGCCTGGGAAAGTTTCCTGTGACCAACAGT
CAAGCACAAAAGCGGATCCTAGAACCAGATGACTTCCTGGATAACCTCGATGATGAGGACTGTGAAGAAGATGCTCCCAA
GCGTCAGGGAAAGGGGTAATCCAAGGGTAAAGGTGTGGCAGTGCCCGTAAGGAGCTGGATGCTTCCAACCTGGAAGACCA
GGATAAGCCCTATGCCTGTGATGTTTGTGGAAAACGTTACAAGAACCGACCAGGCCTCAGTTACCACTATGCCCACTCCC
ACTTGGCTGAGGAGGGCGAGGACAAAGAAGACTCCCAACCACCCACTCCTCTTTCCCAGAAGTCTGAGGAACAGAAATCC
AAAAAGGGTCCTGATGGATTGGCCTTGCCCAACAACTACTGTAACTTCTGCCTGGGGAACTCAAAGATTAACAAGAAGAT
GGGACAACCTGAGGAGCTGGTGTCCTGTTTTGACTGTGGCTGCTCAGGGCATCCATCTTGCCTCCATTTCACCCCCATGA
TGATGGGACAGTGAAGACATACTGCTGGCAGTGCATCGAGTGCAAATGTTGCGACATCTGCGGCACCTCTGAGGATGATG
ACCAGCTGGGCTTCTGTGATGACTGCGATCATGGCTACCAAATGTACTGTCTCACTCCGTCCATATCTGAGCCCCCTGAA
GGAAGTTGGAGGTGCCACCTGTGTCTGGACCTGTTGAAGGAGAAAGCTTCCATCTACCAGAACCAGAACTCCTCT

Alignment

ORF - retro_nleu_516 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 86.02 %
• Parental protein coverage: 81.84 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  YSYPARRWRKKRRAHPPEDPRLSFPSIKPDTDQTLKKEGLISQDGSSLEALLRTDPLEKRGAPDPRVDDD
          YSYPAR.W.KKR.AHP.EDP.LSFP.IKPDTD.TLKKEGLISQD.SSLE.LL.TDPLEK.GAPDPRVDDD
Retrocopy YSYPARHWWKKR*AHPQEDPQLSFPPIKPDTDHTLKKEGLISQDSSSLEVLLHTDPLEKQGAPDPRVDDD

Parental  SLGEFPVTNSRARKRILEPDDFLDDLDDEDYEEDTPKRRGKGKSKGKGV-GSARKKLDASILEDRDKPYA
          SLG.FPVTNS.A.KRILEPDDFLD.LDDED.EED.PKR.GKG.SKGKGV.GSARK.LDAS.LED.DKPYA
Retrocopy SLGKFPVTNSQAQKRILEPDDFLDNLDDEDCEEDAPKRQGKG*SKGKGV<GSARKELDASNLEDQDKPYA

Parental  CDICGKRYKNRPGLSYHYAHSHLAEEEGEDKEDSQPPTPVSQRSEEQKSKKGPDGLALPNNYCDFCLGDS
          CD.CGKRYKNRPGLSYHYAHSHLA.EEGEDKEDSQPPTP.SQ.SEEQKSKKGPDGLALPNNYC.FCLG.S
Retrocopy CDVCGKRYKNRPGLSYHYAHSHLA-EEGEDKEDSQPPTPLSQKSEEQKSKKGPDGLALPNNYCNFCLGNS

Parental  KINKKTGQPEELVSCSDCGRSGHPSCLQFTPVMM-AAVKTYRWQCIECKCCNICGTSENDDQLLFCDDCD
          KINKK.GQPEELVSC.DCG.SGHPSCL.FTP.MM...VKTY.WQCIECKCC.ICGTSE.DDQL.FCDDCD
Retrocopy KINKKMGQPEELVSCFDCGCSGHPSCLHFTPMMM<GTVKTYCWQCIECKCCDICGTSEDDDQLGFCDDCD

Parental  RGYHMYCLTPSMSEPPEGSWSCHLCLDLLKEKASIYQNQNSS
          .GY.MYCLTPS.SEPPEGSW.CHLCLDLLKEKASIYQNQNSS
Retrocopy HGYQMYCLTPSISEPPEGSWRCHLCLDLLKEKASIYQNQNSS

Legend:

• *: Stop codon
• >: Forward frameshift by one nucleotide
• <: Reverse frameshift by one nucleotide

Expression

RNA-Seq

Nomascus leucogenys was not studied using RNA-Seq expression data.

ChIP-Seq

Nomascus leucogenys was not studied using ChIP-Seq data.

EST

Nomascus leucogenys was not studied using EST data.

TSS

Nomascus leucogenys was not studied using FANTOM5 data.

Lab

retro_nleu_516 was not experimentally validated.

Homology

Retrocopy orthology:

Nomascus leucogenys does not belong to any of the species groups (eutheria, teleost or neognath), studied for retrocopy-based homology. For more information about studied groups, please go to help section.

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Parental genes homology:

Parental genes homology involve 5 parental genes, and 5 retrocopies.

Species	Parental gene accession	Retrocopies number
Felis catus	ENSFCAG00000023858	1 retrocopy	retro_fcat_1341,
Homo sapiens	ENSG00000133884	1 retrocopy	retro_hsap_3660,
Macaca mulatta	ENSMMUG00000012317	1 retrocopy	retro_mmul_1794,
Nomascus leucogenys	ENSNLEG00000005574	1 retrocopy	retro_nleu_516 ,
Tarsius syrichta	ENSTSYG00000000038	1 retrocopy	retro_tsyr_1932,